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Comparing microbiota profiles in induced and spontaneous sputum samples in COPD patients.

Abstract：

BACKGROUND:Induced and spontaneous sputum are used to evaluate the airways microbiota. Whether the sputum types can be used interchangeably in microbiota research is unknown. Our aim was to compare microbiota in induced and spontaneous sputum from COPD patients sampled during the same consultation. METHODS:COPD patients from Bergen, Norway, were followed between 2006/2010, examined during the stable state and exacerbations. 30 patients delivered 36 sample pairs. DNA was extracted by enzymatic and mechanical lysis methods. The V3-V4 region of the 16S rRNA gene was PCR-amplified and prepared for paired-end sequencing. Illumina Miseq System was used for sequencing, and Quantitative Insights Into Microbial Ecology (QIIME) and Stata were used for bioinformatics and statistical analyses. RESULTS:Approximately 4 million sequences were sorted into 1004 different OTUs and further assigned to 106 different taxa. Pair-wise comparison of both taxonomic composition and beta-diversity revealed significant differences in one or both parameters in 1/3 of sample pairs. Alpha-diversity did not differ. Comparing abundances for each taxa identified, showed statistically significant differences between the mean abundances in induced versus spontaneous samples for 15 taxa when disease state was considered. This included potential pathogens like Haemophilus and Moraxella. CONCLUSION:When studying microbiota in sputum samples one should take into consideration how samples are collected and avoid the usage of both induced and spontaneous sputum in the same study.

journal_name

Respir Res

journal_title

Respiratory research

authors

Tangedal S,Aanerud M,Grønseth R,Drengenes C,Wiker HG,Bakke PS,Eagan TM

doi

10.1186/s12931-017-0645-3

subject

Has Abstract

pub_date

2017-08-29 00:00:00

pages

164

issue

1

eissn

1465-9921

issn

1465-993X

pii

10.1186/s12931-017-0645-3

journal_volume

18

pub_type

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